RNA id: TCONS_00047108


Basic Information

Item Value
RNA id TCONS_00047108
length 3995
lncRNA type antisense_over
GC content 0.35
exon number 1
gene id XLOC_023196
representative True

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 41786545 ~ 41790539 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CACCCATTGACAGTAAGGATTAGCGTGGTAAACGTCTAGTAGATATGCGTCTGGATCCAGGCAGCGCTCGCCTGCAGTCAACAAAAACAAACGATTAATACATCATTTACACACCGTGATATACACTGAAATATTTctgtattagggctgcatgatattggaaaatctgacattgcgatagtTTATTTTGCTGTAATATGAATATAATCTCGCCAGATGATTTGAGTAGCTCTATTGGGACTGaagatttaattaaattagatcgactgggatgatcaagtctttttctatgcatataataaattcataaaatcatatataacataatatttataacacaatagaacaaaaaattaaattaaattaatttataataaataaaaataacaaagtaaatttaaaataacatggtcatcattctatgaataaaatatataacaatatatttatattttagcattgaataatattaaaatataatgtaatataatattaaatataatatttaatctaatcctgcgatgtcactattgcggatacacacattgcgaaatcgatgctcaaacgatatattgtttaACCCTAATCTGCAAATTATCACTTGTAGCTATAACTTTGACTTGGCATatattgtaatattaaaaataacgaACCTGCGTGTGgaaaagacgcgatatgtgaatGGCCCGCTGCTATGGTTAATCCAGAGTGCGTATTAGCCTTGGTGTAGCTATAAGCTCTGAACTGTTAACTTTTGCACAGGTGgcgtaactttgtttagttgtagCAGTTTTATTCTGTGCAACAGAAATATGGCATTGAGAAGCTTTTATGATTAAGTGTACAAATGTTATCAGCTGCTCGCGCCATtcgcttaatgtcaggtgactcacgctctgcgcggccttcaactgcagctcgtactatattgaacagacgcacgtaaCTTCATAAATAAAGCGGCCGTTTTTTCGACTTAACTAAGATTATTTTTGATgttttggtcacactatttggagggccggatCAAATTGCCTCGTGGGCCAAGTTGAATAGCCCTGAACTACGAAGACGATATTTTCGCGTGTATGTAACATAGTAAACAATGTAACCAATACGTCTCCGGAAGAAACGGTGACGTAAGCAACTgaataaccatccataattcaacactGAACGCGCTCTATGGGATGTTTTTCAATTCACCCTTACCTTTCATAATAAATGTACAGCAATGAATGCGTGAGTGTTTTATTACGATACTAACTACAGTATGTACTTTTTATCTAGCGCACATACAgtgtttataaaaatgtaataatggcTAAATGTTAACTAATACTTTACATGTGCGTTTCACAATAAACTTTTTCTTACAATAAATTATTCTGCTAGGTTTACGCCACGTGTAAGATTGCGTCACTCCCTCTAAATTAATCGCGGGATATTTTTTGACTTAGTTTGGATTGAACTTTTTAACTTGAGCGGAAGACGTGACTGTGGCAAATGCAGAAATTCGCATCTATTTACACGTTTATCTGTTCTTTTTACACATTTATCACGTTAATCTACTTGCGTGAATACTTAAAAGTTACATTCGgtgttaaaaatgtacattatttactatacattattatttacatgtattGTTAATCTTCAATAAATTagatttactgttaaaaaaaacacatcatgtGACTCTTTGATGCTATCTTAGTTGACAGATATCGAAATATAATGTTGATGATTTGCTTGCGATATATCGTCTGTCTCAGAACTTCTGTTATTATATCACTATTGTCGACAAAATATTGTGATAGTATTGTATTGTAAGTTAACCTGTGATTCACACCCCTAGTATTGCTTTATCGTAAATGTATCGTATGTAATAATATTGCGCTCACCGATGTTTCCTCCGACCTCGAACAGAAGCTGTTTCTGTCGTCGACCGCCACTCCGCGATCCATGTCTGCAAACACATTCACTGGTTAACGTAGGTTATATGATGGTATACGTTAAACCATGGTGTTTTTCGTTCACTAACCCTTTCTCTGTGTCAAAATGCGCAGTGATGTCTCTGGCTTTCATATCGGTGCTCAGCTGAATCGCCATTGAAACTTTGGCGTGAAGCGGCGCATGAACTCTGATGACCCCGTCACGAAGATCCTTCACCTGAGAGAGaatgtgaattattattaatactgttgATAAATCAGGCAGTTATTGTGATAGCCTGTTTCTGCTATGGAATAAAAACCTAAATGCAACCTTGTTTGTCATTTTAGCTTAATTTAATCGCAAGATAGCAAGACATCAAATAAGAAACGCAATAAGTCTTATAATATCACTTCCTCCAGAATTGTTTATATAAAGTTTTTCTACCGTTTTACTTAAGAATTGTGAgataaaactattttgttgaaTTAAATGCCATAATTGTGAGATCAAAAATTTGGGAACAcctttttagttgttttatttttatgttgaaaaCATTAAGTTCTCAACGAATGTGCATCTATTAACTTAATAATAGTTTTATGAATGGAACCCTTCCTTatttaagtacaccttactagtaccgggtcggacccctttgccttcagaactcccTTAATTCttggtggcagagattcaactaacgagcagctggacaggtgtacctaataaagtggccggtgagtgtgtatagcTGAGAATAAGTGAATGGAAGTGTTTAATTTGTGGTTTATTCgaaaataacaacaacagttTTATGTTTTCCATGTTCCAATGTTTGTTTAAAACCCACCAAAAAGCCTCATATTACAAACAGGCTCATTACATAGGTGCTCGGTCTTCACACACTACAgtcaatatttgtattatttatttttaaacctgATGCGTTTTAAAATGCGTTTCACTTCCTGTTCTTGCTTCAtccattaaaataataatcatattacgATTTAATCAATTATgacctttcattttttttgtaacGCTAATGAAAGTCTATGAAAGGCGCGCGTTTCTCGCGGCACAACACCGGCCCTCCTTTTGGGACTGTTCACCGTTTCTGTAACACTCCGCTAGCAGATTCGCGCCAAAATGAATACAAATCAGTCACGCATTAATTCGGATTATATTTaaaaagcgattgattaaagacGAAAACAAGGCGTTCACAACAGATACAGTCATTAAAAGATCAACAATCTCACAAGGCTCATCGGCGACTGAGTATTATCCCACTGAATATTATACGaatataatattcatatataatatatgaatattaAATCACCTGGAGGACGTTATAACCTCTAAATACACCACATTCAGCAGGAAACGGACCTTTCTGAAGAAGGAAAACACTACAGACAAACGCAGGTATGTTAGGTTAATCACTTTCTTTCTCTTATGATGGATAATCCGACTCATACTGACTGATTTAAGAGATGTTTAGTGGTCGTTTCACACAAAACGTGCTCGAGTGACGCAAAAGATAACGCTTAATACCGTGTTAATAACCTTTATAACGCGTCTGGGGAACTGAGTATTTATTGACGTCAATGAATAACCGCTGAACCTTTATGAACAGCATGTGAAAATGTGCTTTCAGACGCAGAGATGAGCTGTAGTCAAATatatctgaataaataaatatgtttaagaatCTATAATAACGTACTGGTGTAGTATAGTAGTTTTTATCATTAGATAGCAGTCTGCTCATTAAATGCTAAAAACCTATTCAATTGATTTGATGCTATAACTTAGTACTTATTAAGTGCGTACTTCACCGGTTATATCAATACTGCTGCCTAGTATGCCAGTTATAACACTCTATATTATTTTGATATAATCAGAAATGTTAGTAGGCCTGCTGGTAAAAATATTCTGGAAGTAAAACGTTAATAATGTATGTTCAGGTTTTGGTTCATAATCATGAATCAACATCTGTCGTTTTTCTGCAAAAtaattgcaatatgaatacaatgtTACCTCAG

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0048729 tissue morphogenesis biological_process
GO:0048731 system development biological_process
GO:0016070 RNA metabolic process biological_process
GO:0016072 rRNA metabolic process biological_process
GO:0022613 ribonucleoprotein complex biogenesis biological_process
GO:0002009 morphogenesis of an epithelium biological_process
GO:0034470 ncRNA processing biological_process
GO:0006364 rRNA processing biological_process
GO:0030154 cell differentiation biological_process
GO:0048513 animal organ development biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0031290 retinal ganglion cell axon guidance biological_process
GO:0035295 tube development biological_process
GO:0006396 RNA processing biological_process
GO:0030182 neuron differentiation biological_process
GO:0007275 multicellular organism development biological_process
GO:0009888 tissue development biological_process
GO:0030490 maturation of SSU-rRNA biological_process
GO:0060429 epithelium development biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:0021915 neural tube development biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0060485 mesenchyme development biological_process
GO:0000469 cleavage involved in rRNA processing biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0000478 endonucleolytic cleavage involved in rRNA processing biological_process
GO:0000479 endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0061053 somite development biological_process
GO:0007399 nervous system development biological_process
GO:0032502 developmental process biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0007417 central nervous system development biological_process
GO:0007420 brain development biological_process
GO:0022008 neurogenesis biological_process
GO:0048699 generation of neurons biological_process
GO:0034660 ncRNA metabolic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0060322 head development biological_process
GO:0090501 RNA phosphodiester bond hydrolysis biological_process
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic biological_process
GO:0009790 embryo development biological_process
GO:0030684 preribosome cellular_component
GO:0030686 90S preribosome cellular_component
GO:0032040 small-subunit processome cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0070013 intracellular organelle lumen cellular_component
GO:0005634 nucleus cellular_component
GO:0031974 membrane-enclosed lumen cellular_component
GO:0031981 nuclear lumen cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043233 organelle lumen cellular_component
GO:0005730 nucleolus cellular_component
GO:0005488 binding molecular_function
GO:0034511 U3 snoRNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0030515 snoRNA binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko03230 Viral genome structure
ko05164 Influenza A
ko05016 Huntington disease
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00046833 lncRNA upstream 341826 41402545 ~ 41444719 (+) False XLOC_023190
TCONS_00046835 lncRNA upstream 341826 41440080 ~ 41444719 (+) True XLOC_023190
TCONS_00046834 lncRNA upstream 351060 41433515 ~ 41435485 (+) True XLOC_023191
TCONS_00046832 lncRNA upstream 397906 41386625 ~ 41388639 (+) True XLOC_023189
TCONS_00047107 lncRNA upstream 469663 41312307 ~ 41316882 (+) True XLOC_023188
TCONS_00047109 lncRNA downstream 191588 41982127 ~ 41987332 (+) True XLOC_023198
TCONS_00047110 lncRNA downstream 285436 42075975 ~ 42076966 (+) False XLOC_023202
TCONS_00047111 lncRNA downstream 285440 42075979 ~ 42076966 (+) False XLOC_023202
TCONS_00047112 lncRNA downstream 285441 42075980 ~ 42076966 (+) False XLOC_023202
TCONS_00047113 lncRNA downstream 285443 42075982 ~ 42076966 (+) False XLOC_023202
TCONS_00045921 mRNA upstream 2372 41690545 ~ 41784173 (+) True XLOC_023194
TCONS_00045920 mRNA upstream 175344 41610068 ~ 41611201 (+) True XLOC_023193
TCONS_00045918 mRNA upstream 483306 41281265 ~ 41303239 (+) True XLOC_023187
TCONS_00045916 mRNA upstream 483537 41273252 ~ 41303008 (+) False XLOC_023187
TCONS_00045917 mRNA upstream 495761 41281265 ~ 41290784 (+) False XLOC_023187
TCONS_00045923 mRNA downstream 125339 41915878 ~ 41917794 (+) True XLOC_023197
TCONS_00045924 mRNA downstream 141046 41931585 ~ 41986895 (+) False XLOC_023198
TCONS_00045925 mRNA downstream 149760 41940299 ~ 41986597 (+) False XLOC_023198
TCONS_00045926 mRNA downstream 198569 41989108 ~ 41994676 (+) True XLOC_023199
TCONS_00045927 mRNA downstream 214101 42004640 ~ 42018243 (+) True XLOC_023200
TCONS_00045922 other upstream 75741 41710688 ~ 41710804 (+) True XLOC_023195
TCONS_00045919 other upstream 249354 41537062 ~ 41537191 (+) True XLOC_023192
TCONS_00045913 other upstream 1138173 40648256 ~ 40648372 (+) True XLOC_023180
TCONS_00045904 other upstream 1998981 39787473 ~ 39787564 (+) True XLOC_023169
TCONS_00045896 other upstream 2139474 39638589 ~ 39647071 (+) False XLOC_023163

Expression Profile

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